Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 169 of 427
Found at i:47066561 original size:80 final size:80
Alignment explanation
Indices: 47066396--47066582 Score: 211
Period size: 80 Copynumber: 2.3 Consensus size: 80
47066386 AATTGAATGA
* ** * * *
47066396 TATCCGGGCTAAGTCCCGAAGATGTTAATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
47066461 TTGTGCTAGTGGCTAC
66 TTGTGCGAGT-GCTAC
* *
47066477 -ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGTAATTTTATCCGGGCTAAGACCCGAAGGC-A
1 TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
*
47066540 TTCGTGCGAGT-CATTC
66 TT-GTGCGAGTGC-TAC
*
47066556 TATCCGGGCTAAGACCCGAAGG-CATTT
1 TATCCGGGCTAAGTCCCG-AGGACATTT
47066583 GTGCAAATCG
Statistics
Matches: 91, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 5 0.05
80 82 0.90
81 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGTCCCGAGGACATTTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCGAGTGCTAC
Found at i:47066601 original size:40 final size:40
Alignment explanation
Indices: 47066432--47066586 Score: 177
Period size: 40 Copynumber: 3.9 Consensus size: 40
47066422 AATGCTGGAA
* * *
47066432 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTC
** * * * *
47066472 GCTACATCCGGGCTAAGTCCCG-AGGACATTTATGCTAGTA
1 ATTATATCCGGGCTAAGACCCGAAGG-CATTTGTGCTAGTC
* * *
47066512 ATTTTATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTC
*
47066552 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
47066587 AAATCGTGAT
Statistics
Matches: 94, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 88 0.94
41 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTC
Found at i:47074644 original size:40 final size:40
Alignment explanation
Indices: 47074561--47074662 Score: 116
Period size: 40 Copynumber: 2.6 Consensus size: 40
47074551 TAGGCTATGC
* * **
47074561 TATCC-GGCTAAGACCCGAAGGCATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGA
* *
47074600 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGA
* * *
47074640 TATCCGGGTTAAGTCCCGTAGGC
1 TATCCGGGCTAAGACCCGAAGGC
47074663 CTTGGTGCGG
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 5 0.09
40 48 0.91
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGA
Found at i:47076707 original size:21 final size:21
Alignment explanation
Indices: 47076683--47076747 Score: 75
Period size: 19 Copynumber: 3.3 Consensus size: 21
47076673 TATGCAACCT
47076683 AAGCAGAATATCATATGTATG
1 AAGCAGAATATCATATGTATG
* *
47076704 AAGCAG-TTAT-ACATGTA--
1 AAGCAGAATATCATATGTATG
47076721 AAGCAGAATATCATATGTATG
1 AAGCAGAATATCATATGTATG
*
47076742 CAGCAG
1 AAGCAG
47076748 TTATACATGT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
17 6 0.17
18 3 0.09
19 12 0.34
20 3 0.09
21 11 0.31
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (21 bp):
AAGCAGAATATCATATGTATG
Found at i:47076734 original size:38 final size:38
Alignment explanation
Indices: 47076683--47076759 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
47076673 TATGCAACCT
47076683 AAGCAGAATATCATATGTATGAAGCAGTTATACATGTA
1 AAGCAGAATATCATATGTATGAAGCAGTTATACATGTA
*
47076721 AAGCAGAATATCATATGTATGCAGCAGTTATACATGTA
1 AAGCAGAATATCATATGTATGAAGCAGTTATACATGTA
47076759 A
1 A
47076760 CATCCATAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.29
Consensus pattern (38 bp):
AAGCAGAATATCATATGTATGAAGCAGTTATACATGTA
Found at i:47076757 original size:19 final size:19
Alignment explanation
Indices: 47076697--47076758 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
47076687 AGAATATCAT
47076697 ATGTATGAAGCAGTTATAC
1 ATGTATGAAGCAGTTATAC
* *
47076716 ATGTA--AAGCAGAATATCAT
1 ATGTATGAAGCAG-TTAT-AC
*
47076735 ATGTATGCAGCAGTTATAC
1 ATGTATGAAGCAGTTATAC
47076754 ATGTA
1 ATGTA
47076759 ACATCCATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
17 6 0.18
18 3 0.09
19 17 0.50
20 3 0.09
21 5 0.15
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (19 bp):
ATGTATGAAGCAGTTATAC
Found at i:47077206 original size:56 final size:57
Alignment explanation
Indices: 47077138--47077248 Score: 145
Period size: 57 Copynumber: 2.0 Consensus size: 57
47077128 TACCTGTATA
* * * * *
47077138 TGGCCCACTAGG-CCTAATCTCTTTCATATGGCCCATTAGG-CCTAATCACATTTATG
1 TGGCCCACTAGGCCCAAATCACATTCATATGG-CCATAAGGCCCAAATCACATTTATG
*
47077194 TGGCCCATTAGGCCCAAATCACATTCATATGGCCATAAGGCCCAAATCACATTTA
1 TGGCCCACTAGGCCCAAATCACATTCATATGGCCATAAGGCCCAAATCACATTTA
47077249 CAGTCACGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 18 0.38
57 29 0.62
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (57 bp):
TGGCCCACTAGGCCCAAATCACATTCATATGGCCATAAGGCCCAAATCACATTTATG
Found at i:47077238 original size:28 final size:29
Alignment explanation
Indices: 47077135--47077246 Score: 131
Period size: 28 Copynumber: 4.0 Consensus size: 29
47077125 ACATACCTGT
* * * *
47077135 ATATGGCCCACTAGG-CCTAATCTCTTTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
* *
47077163 ATATGGCCCATTAGG-CCTAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATTC
*
47077191 ATGTGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
*
47077220 ATATGG-CCATAAGGCCCAAATCACATT
1 ATATGGCCCATTAGGCCCAAATCACATT
47077247 TACAGTCACG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 58 0.78
29 16 0.22
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:47083077 original size:15 final size:16
Alignment explanation
Indices: 47083042--47083077 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
47083032 AAAAGTGTCA
*
47083042 TCTTCTTCAATTTGTT
1 TCTTCTTCAATTTGAT
47083058 TCTTCTTCAA-TTGAT
1 TCTTCTTCAATTTGAT
47083073 TCTTC
1 TCTTC
47083078 AAGGGAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.14, C:0.22, G:0.06, T:0.58
Consensus pattern (16 bp):
TCTTCTTCAATTTGAT
Found at i:47088298 original size:17 final size:17
Alignment explanation
Indices: 47088278--47088312 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
47088268 TAAATCCCCC
47088278 GTAATGTAAAATCATAA
1 GTAATGTAAAATCATAA
*
47088295 GTAATGTAAACTCATAA
1 GTAATGTAAAATCATAA
47088312 G
1 G
47088313 GTGATGTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.29
Consensus pattern (17 bp):
GTAATGTAAAATCATAA
Found at i:47090697 original size:24 final size:23
Alignment explanation
Indices: 47090669--47090713 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
47090659 CAACTCCTAC
*
47090669 CCATCCAGCCAATACACTCCATCT
1 CCATCCAACC-ATACACTCCATCT
*
47090693 CCATCCAACCCTACACTCCAT
1 CCATCCAACCATACACTCCAT
47090714 GCGGGGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.29, C:0.49, G:0.02, T:0.20
Consensus pattern (23 bp):
CCATCCAACCATACACTCCATCT
Found at i:47091004 original size:27 final size:27
Alignment explanation
Indices: 47090963--47091015 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
47090953 AAACATACAT
* * *
47090963 CACATAGGGGTAAAATAATCATTTTAG
1 CACATAAGGGCAAAACAATCATTTTAG
*
47090990 CACATAAGGGCAAAACAGTCATTTTA
1 CACATAAGGGCAAAACAATCATTTTA
47091016 TCGATTAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (27 bp):
CACATAAGGGCAAAACAATCATTTTAG
Found at i:47091282 original size:20 final size:19
Alignment explanation
Indices: 47091242--47091284 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
47091232 AAGCCCGTGG
**
47091242 GGCCCACATGGCCCATTTC
1 GGCCCACATGGCCCAAATC
47091261 GGCCCAACATGGCCCAAATC
1 GGCCC-ACATGGCCCAAATC
47091281 GGCC
1 GGCC
47091285 TAAGCCCATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.21, C:0.42, G:0.23, T:0.14
Consensus pattern (19 bp):
GGCCCACATGGCCCAAATC
Found at i:47097922 original size:27 final size:27
Alignment explanation
Indices: 47097891--47098072 Score: 217
Period size: 27 Copynumber: 6.7 Consensus size: 27
47097881 CTGTATATGA
*
47097891 TAAAATGATTGTTTTACCCTTATGAGG
1 TAAAATGATTGTTTTGCCCTTATGAGG
*
47097918 TAAAATGATTGTTTTGCCTTTATGAGG
1 TAAAATGATTGTTTTGCCCTTATGAGG
* * *
47097945 TAAAATGACTGTTTTTCCCTTATGTGG
1 TAAAATGATTGTTTTGCCCTTATGAGG
* *
47097972 TAAGATGACTGTTTTGCCCTTATGAGG
1 TAAAATGATTGTTTTGCCCTTATGAGG
* *
47097999 TAAAATGAGTGTTTTTCCCTTAT-ATGG
1 TAAAATGATTGTTTTGCCCTTATGA-GG
*
47098026 TAAAATGATTGTTTTGCCCTTA-AATGG
1 TAAAATGATTGTTTTGCCCTTATGA-GG
*
47098053 TAAGATGACTT-TTTTGCCCT
1 TAAAATGA-TTGTTTTGCCCT
47098073 ATGTGATGTA
Statistics
Matches: 137, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.01
27 134 0.98
28 2 0.01
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (27 bp):
TAAAATGATTGTTTTGCCCTTATGAGG
Found at i:47098039 original size:81 final size:81
Alignment explanation
Indices: 47097895--47098072 Score: 250
Period size: 81 Copynumber: 2.2 Consensus size: 81
47097885 ATATGATAAA
* * * *
47097895 ATGATTGTTTTACCCTTATGAGGTAAAATGATTGTTTTGCCTTTATGAGGTAAAATGACTGTTTT
1 ATGACTGTTTTGCCCTTATGAGGTAAAATGAGTGTTTTGCCCTTATGAGGTAAAATGACTGTTTT
* **
47097960 TCCCTTATGTGGTAAG
66 GCCCTTAAATGGTAAG
* *
47097976 ATGACTGTTTTGCCCTTATGAGGTAAAATGAGTGTTTTTCCCTTAT-ATGGTAAAATGATTGTTT
1 ATGACTGTTTTGCCCTTATGAGGTAAAATGAGTGTTTTGCCCTTATGA-GGTAAAATGACTGTTT
47098040 TGCCCTTAAATGGTAAG
65 TGCCCTTAAATGGTAAG
*
47098057 ATGACTTTTTTGCCCT
1 ATGACTGTTTTGCCCT
47098073 ATGTGATGTA
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 85 0.99
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (81 bp):
ATGACTGTTTTGCCCTTATGAGGTAAAATGAGTGTTTTGCCCTTATGAGGTAAAATGACTGTTTT
GCCCTTAAATGGTAAG
Found at i:47100265 original size:21 final size:20
Alignment explanation
Indices: 47100220--47100265 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
47100210 TTGTTAGAAT
47100220 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
47100239 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
47100260 GGTTGA
1 GGTTGA
47100266 TTGCATTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:47107052 original size:40 final size:39
Alignment explanation
Indices: 47107008--47107189 Score: 229
Period size: 39 Copynumber: 4.6 Consensus size: 39
47106998 GTTCAAAACA
* * ** * *
47107008 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
47107048 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
** *
47107088 CCTTCGGGCTTAGCCCGGGGATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
47107127 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
47107166 CCTTCGGGCTTAGCCCAGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
47107190 CTCGAACATT
Statistics
Matches: 126, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 86 0.68
40 40 0.32
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:47107119 original size:39 final size:39
Alignment explanation
Indices: 47107038--47107189 Score: 232
Period size: 39 Copynumber: 3.9 Consensus size: 39
47107028 TATGGTAACC
* * * *
47107038 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
**
47107078 CGCACAATTGCCTTCGGGCTTAGCCCGGGGATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
47107117 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
47107156 CGCACAATTGCCTTCGGGCTTAGCCCAGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
47107190 CTCGAACATT
Statistics
Matches: 103, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 86 0.83
40 17 0.17
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:47118694 original size:11 final size:11
Alignment explanation
Indices: 47118678--47118707 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
47118668 GATAGAAATA
47118678 ATTATTTTATG
1 ATTATTTTATG
47118689 ATTATTTTATG
1 ATTATTTTATG
47118700 ATTATTTT
1 ATTATTTT
47118708 GAGGACTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (11 bp):
ATTATTTTATG
Found at i:47120221 original size:49 final size:49
Alignment explanation
Indices: 47120149--47120435 Score: 324
Period size: 49 Copynumber: 5.8 Consensus size: 49
47120139 TGAGGTCACG
* *
47120149 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
*
47120198 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * * * *
47120247 TGTGTAGTACTATGTACAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
* ** ** * * *
47120298 TGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT-TGGTCGCA
*
47120348 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAATTGGTCGCA
* *
47120397 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
47120436 GCTTCGGCTA
Statistics
Matches: 203, Mismatches: 31, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
48 1 0.00
49 122 0.60
50 45 0.22
51 35 0.17
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:47120417 original size:150 final size:149
Alignment explanation
Indices: 47120144--47120430 Score: 423
Period size: 150 Copynumber: 1.9 Consensus size: 149
47120134 TATTGTGAGG
* * * *
47120144 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATATACCAGATAATAGGTCACATGTGTAGTACT
* *
47120209 AAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTATGTACAGGCTACTAT
66 AAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGTACAGGCTACTAT
47120274 GCGTACCCGAAAACTGTGA
131 GCGTACCCGAAAACTGTGA
* ** ** *
47120293 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATATTAGATGGTGAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATATACCAGATAAT-AGGTCACATGTGTAGTAC
* *
47120358 TAAGTGCAGGCTACTACGTGTACCAGACT-GTTGGTCGCATGTGTAGTACTAAGTGCAGGCTACT
65 TAAGTGCAGGCTACTACGTGTACCAGA-TAATTGGTCGCATGTGTAGTACTAAGTACAGGCTACT
47120422 ATGCGTACC
129 ATGCGTACC
47120431 AGATAGCTTC
Statistics
Matches: 122, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
149 39 0.32
150 82 0.67
151 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (149 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATATACCAGATAATAGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAAGTACAGGCTACTAT
GCGTACCCGAAAACTGTGA
Found at i:47123486 original size:29 final size:26
Alignment explanation
Indices: 47123441--47123496 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 26
47123431 CATAGTATCG
47123441 TATCTTGGGTTCTTTATTCTGGGTTTTC
1 TATCTTGGGTTCTTTATTC--GGTTTTC
*
47123469 TATCTTGGATTTCTTTATTCGGTTTTC
1 TATCTTGG-GTTCTTTATTCGGTTTTC
47123496 T
1 T
47123497 TGTTATCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 8 0.31
28 8 0.31
29 10 0.38
ACGTcount: A:0.09, C:0.14, G:0.18, T:0.59
Consensus pattern (26 bp):
TATCTTGGGTTCTTTATTCGGTTTTC
Found at i:47125702 original size:49 final size:51
Alignment explanation
Indices: 47125631--47125763 Score: 182
Period size: 49 Copynumber: 2.6 Consensus size: 51
47125621 GTGAGGTCAT
* * * *
47125631 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCGCA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGAAAACTGTGATC-AA
* *
47125681 -TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCAA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGAAAACTGTGATCAA
47125731 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTA
47125764 TTAGATGGTG
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
49 36 0.50
50 2 0.03
51 34 0.47
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (51 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCCGAAAACTGTGATCAA
Found at i:47127451 original size:30 final size:30
Alignment explanation
Indices: 47127415--47127545 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
47127405 GACAAGATTG
* * * * *
47127415 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
47127445 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
47127473 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
47127503 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
47127532 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
47127546 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:47127506 original size:58 final size:58
Alignment explanation
Indices: 47127415--47127545 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
47127405 GACAAGATTG
* * * * * *
47127415 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
47127473 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
47127532 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
47127546 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:47135387 original size:30 final size:30
Alignment explanation
Indices: 47135351--47135481 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
47135341 GACAAGATTG
* * * * *
47135351 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
47135381 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
47135409 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
47135439 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
47135468 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
47135482 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:47135442 original size:58 final size:58
Alignment explanation
Indices: 47135351--47135481 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
47135341 GACAAGATTG
* * * * * *
47135351 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
47135409 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
47135468 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
47135482 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:47141461 original size:25 final size:25
Alignment explanation
Indices: 47141387--47141464 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
47141377 CTCGGCCCTG
47141387 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
** *
47141412 TCACAT-T-GGCTA--TTCAGCCTT-A
1 TCACATATATAC-ACCTTCA-CATTCA
47141434 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
47141459 TCACAT
1 TCACAT
47141465 CTGCCATTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 6 0.15
25 17 0.43
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (25 bp):
TCACATATATACACCTTCACATTCA
Found at i:47141510 original size:49 final size:47
Alignment explanation
Indices: 47141336--47141652 Score: 433
Period size: 47 Copynumber: 6.7 Consensus size: 47
47141326 CCCTTCGGGA
* * * * * *
47141336 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* * *
47141383 CCTGTCACATATATACACCTTCACATTCATCACATTGGCTATTCA-GC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATT-AGGC
47141430 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGC
* *
47141477 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATTGGCCATTAGGC
47141526 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGC
*
47141575 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
47141622 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
47141653 GCGTAAAATC
Statistics
Matches: 242, Mismatches: 18, Indels: 20
0.86 0.06 0.07
Matches are distributed among these distances:
46 2 0.01
47 150 0.62
48 2 0.01
49 87 0.36
50 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
Found at i:47141533 original size:96 final size:94
Alignment explanation
Indices: 47141336--47141652 Score: 442
Period size: 96 Copynumber: 3.3 Consensus size: 94
47141326 CCCTTCGGGA
* * * * * * * *
47141336 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* *
47141401 CTTCACATTCATCACATTGGCTATTCA-GC
66 CTTCACATTCATCACATCGGCCATT-AGGC
47141430 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGCCTTATCACATATATATA
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGCCTTATCAC--ATATATA
*
47141494 CACTTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
47141526 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GCCTTATCACATATATA
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGCCTTATCACATATATA
47141590 CACCTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
*
47141622 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
47141653 GCGTAAAATC
Statistics
Matches: 202, Mismatches: 13, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
94 57 0.28
95 2 0.01
96 108 0.53
97 2 0.01
98 32 0.16
99 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGC
Found at i:47145308 original size:40 final size:40
Alignment explanation
Indices: 47145263--47145429 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
47145253 CGGAATATAA
47145263 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
47145303 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
47145343 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
47145383 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
47145422 CCGGATAT
1 CCGGATAT
47145430 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:47149367 original size:29 final size:29
Alignment explanation
Indices: 47149334--47149464 Score: 162
Period size: 29 Copynumber: 4.6 Consensus size: 29
47149324 GTGACGAGAT
*
47149334 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
*
47149363 TGGCACTAAGTGTGCGTGCTGGAAATAT-
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
*
47149391 TGGCACTAAGTGTGC-AGCTGGAAAAATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
** *
47149419 TGGCACTGTGTGTGCGAGCT-TAAAT-TA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
47149446 CGTGGCACTAAGTGTGCGA
1 --TGGCACTAAGTGTGCGA
47149465 AATCGAGTAG
Statistics
Matches: 90, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
27 12 0.13
28 31 0.34
29 47 0.52
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:47149403 original size:57 final size:57
Alignment explanation
Indices: 47149332--47149464 Score: 171
Period size: 57 Copynumber: 2.3 Consensus size: 57
47149322 TGGTGACGAG
* * *
47149332 ATTGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAA-T
1 ATTGGCACTAAGTGTGCGAGCTGGAAAAATATGGCACTAAGTGTGCGAGCT-GAAATT
** *
47149389 ATTGGCACTAAGTGTGC-AGCTGGAAAAATATGGCACTGTGTGTGCGAGCTTAAATT
1 ATTGGCACTAAGTGTGCGAGCTGGAAAAATATGGCACTAAGTGTGCGAGCTGAAATT
*
47149445 ACGTGGCACTAAGTGTGCGA
1 A-TTGGCACTAAGTGTGCGA
47149465 AATCGAGTAG
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
55 3 0.05
56 30 0.45
57 32 0.48
58 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (57 bp):
ATTGGCACTAAGTGTGCGAGCTGGAAAAATATGGCACTAAGTGTGCGAGCTGAAATT
Found at i:47157411 original size:29 final size:29
Alignment explanation
Indices: 47157378--47157512 Score: 148
Period size: 29 Copynumber: 4.6 Consensus size: 29
47157368 GTGTCGAGAT
*
47157378 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
47157407 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
47157436 TGGCACTAAGTGTGCAAGCTGGAAAAAAATA
1 TGGCACTAAGTGTGCGAGCTGG--AAATATA
** *
47157467 TGGCACTGTGTGTGCGAGCT-TAAAT-TA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
47157494 CGTGGCACTAAGTGTGCGA
1 --TGGCACTAAGTGTGCGA
47157513 AATCGAGTAG
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.02
28 3 0.03
29 63 0.70
31 22 0.24
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:47157500 original size:60 final size:58
Alignment explanation
Indices: 47157378--47157510 Score: 151
Period size: 60 Copynumber: 2.3 Consensus size: 58
47157368 GTGTCGAGAT
** * * **
47157378 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCAAGCTGGAAAAATATGGCACTAAGTGTGCGAGCTGGAAATACG
** *
47157436 TGGCACTAAGTGTGCAAGCTGGAAAAAAATATGGCACTGTGTGTGCGAGCT-TAAATTACG
1 TGGCACTAAGTGTGCAAGCTGG--AAAAATATGGCACTAAGTGTGCGAGCTGGAAA-TACG
47157496 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
47157511 GAAATCGAGT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
58 20 0.32
59 3 0.05
60 40 0.63
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (58 bp):
TGGCACTAAGTGTGCAAGCTGGAAAAATATGGCACTAAGTGTGCGAGCTGGAAATACG
Found at i:47162979 original size:47 final size:46
Alignment explanation
Indices: 47162928--47163096 Score: 123
Period size: 44 Copynumber: 3.6 Consensus size: 46
47162918 GAGTGCCAAA
47162928 GTAAGACATGTCTGGGACATGCATCGGCCTCAATAGAGATAGTTAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTCAATAGAG-TAGTTAGT
* * * * * *
47162975 GTAAGACGTCTCTAGGATACGCATCGG-CT--A-AGAGTTGTGCTAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTCAATAGAGTAGT--TAGT
* * * * **
47163019 GTAATACATGTCTGGGACATGCACCAGCACGCATATATGAG-AGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGC-CTCA-ATA-GAGTAGTTAGT
47163067 GTAAGACCATGTCTGGGACATGGCATCGGC
1 GTAAGA-CATGTCTGGGACAT-GCATCGGC
47163097 AATATATCCC
Statistics
Matches: 90, Mismatches: 21, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 24 0.27
46 3 0.03
47 22 0.24
48 8 0.09
49 15 0.17
50 8 0.09
51 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCGGCCTCAATAGAGTAGTTAGT
Found at i:47165361 original size:12 final size:12
Alignment explanation
Indices: 47165344--47165371 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
47165334 ATATTAACTA
47165344 ATTTAAATGCAT
1 ATTTAAATGCAT
47165356 ATTTAAATGCAT
1 ATTTAAATGCAT
47165368 ATTT
1 ATTT
47165372 GTTACTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (12 bp):
ATTTAAATGCAT
Found at i:47165478 original size:13 final size:13
Alignment explanation
Indices: 47165462--47165514 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
47165452 TTTAAACCAA
47165462 ACTTTTTAAAAGC
1 ACTTTTTAAAAGC
* *
47165475 ACTTTTTCACAGC
1 ACTTTTTAAAAGC
47165488 ACTTTTTAAAAGC
1 ACTTTTTAAAAGC
*
47165501 ACTTTTCAAAAGC
1 ACTTTTTAAAAGC
47165514 A
1 A
47165515 TTGCCAAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (13 bp):
ACTTTTTAAAAGC
Found at i:47165480 original size:26 final size:26
Alignment explanation
Indices: 47165451--47165506 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
47165441 AACACTCAAA
47165451 TTTTAAACCA-AACTTTTTAAAAGCAC
1 TTTTAAA-CAGAACTTTTTAAAAGCAC
** *
47165477 TTTTTCACAGCACTTTTTAAAAGCAC
1 TTTTAAACAGAACTTTTTAAAAGCAC
47165503 TTTT
1 TTTT
47165507 CAAAAGCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (26 bp):
TTTTAAACAGAACTTTTTAAAAGCAC
Found at i:47169074 original size:29 final size:29
Alignment explanation
Indices: 47169041--47169200 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
47169031 GTGACGAGAT
47169041 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
47169070 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
47169099 TGGCACTAAGTGTGCATGCTGGAAATTTA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
47169128 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
47169157 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
47169186 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
47169201 GAAATCGAGT
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 107 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:47170932 original size:42 final size:44
Alignment explanation
Indices: 47170838--47170932 Score: 126
Period size: 43 Copynumber: 2.2 Consensus size: 44
47170828 CAATGCCAAC
*
47170838 GTCCCAGAC-GTGATCTTACATGCAATCAAATATCCATGCCATT
1 GTCCCAGACAGTGATCTTACATGAAATCAAATATCCATGCCATT
* *
47170881 GTCCCAGACAG-GGTCTTACATGAAATCAAATA-CGATGCCGA-T
1 GTCCCAGACAGTGATCTTACATGAAATCAAATATCCATGCC-ATT
47170923 GTCCCAGACA
1 GTCCCAGACA
47170933 TAGTCTTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
42 17 0.36
43 29 0.62
44 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (44 bp):
GTCCCAGACAGTGATCTTACATGAAATCAAATATCCATGCCATT
Found at i:47172295 original size:25 final size:25
Alignment explanation
Indices: 47172265--47172315 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
47172255 ACATTTTACC
47172265 ACACATTTTACAACCTTTTACAATT
1 ACACATTTTACAACCTTTTACAATT
47172290 ACACATTTTACAACCTTTTACAATT
1 ACACATTTTACAACCTTTTACAATT
47172315 A
1 A
47172316 GGTCCCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39
Consensus pattern (25 bp):
ACACATTTTACAACCTTTTACAATT
Found at i:47179702 original size:23 final size:23
Alignment explanation
Indices: 47179676--47179722 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
47179666 ATTTTCACTG
47179676 TATACTCTCTCAGAATAGTACTA
1 TATACTCTCTCAGAATAGTACTA
47179699 TATACTCTCTCAGAATAGTACTA
1 TATACTCTCTCAGAATAGTACTA
47179722 T
1 T
47179723 TCACTATACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (23 bp):
TATACTCTCTCAGAATAGTACTA
Found at i:47181392 original size:28 final size:28
Alignment explanation
Indices: 47181360--47181428 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
47181350 GTGGTTGTAC
*
47181360 ATATATTATATATATGCATGGCTTTCTT
1 ATATATTATATATATGCATGGCTTTATT
* * * *
47181388 TTATATAATATAGATGCATGGTTTTATT
1 ATATATTATATATATGCATGGCTTTATT
*
47181416 ATATAGTATATAT
1 ATATATTATATAT
47181429 TAATGGATTT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (28 bp):
ATATATTATATATATGCATGGCTTTATT
Found at i:47181460 original size:5 final size:5
Alignment explanation
Indices: 47181444--47181485 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
47181434 GATTTTGGTG
*
47181444 TAATA TATTA TAATA TAATA TAATA TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA
47181486 TATGGTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TAATA
Found at i:47181907 original size:36 final size:36
Alignment explanation
Indices: 47181867--47181937 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
47181857 TTGTGAACCA
*
47181867 TGTTAACTTGGTGAATTATATTATTATGGCGAACTG
1 TGTTAACTTGGTGAATTATATTATTATGGCAAACTG
*
47181903 TGTTAATTTGGTGAATTATATTATTATGGCAAACT
1 TGTTAACTTGGTGAATTATATTATTATGGCAAACT
47181938 AAATTACTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.44
Consensus pattern (36 bp):
TGTTAACTTGGTGAATTATATTATTATGGCAAACTG
Found at i:47184364 original size:20 final size:20
Alignment explanation
Indices: 47184332--47184369 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
47184322 TAATATTTAG
47184332 TTTAAGCAATTAA-ATGTGT
1 TTTAAGCAATTAACATGTGT
47184351 TTTAAGCTAATTAACATGT
1 TTTAAGC-AATTAACATGT
47184370 CTAAGAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (20 bp):
TTTAAGCAATTAACATGTGT
Found at i:47197249 original size:25 final size:24
Alignment explanation
Indices: 47197227--47197302 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 24
47197217 CTCACAGCAC
*
47197227 TCACTTCTCGCTAAGCTTGCAGCTT
1 TCACTTCTTGCTAAGCTTGCAGC-T
* *
47197252 TGACATCTTGCTAAGCTTGCAGCT
1 TCACTTCTTGCTAAGCTTGCAGCT
*
47197276 TGCACATTTTTGCTAAGCTTGCAGCT
1 T-CAC-TTCTTGCTAAGCTTGCAGCT
47197302 T
1 T
47197303 GCACATTGGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
24 2 0.05
25 22 0.51
26 19 0.44
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.37
Consensus pattern (24 bp):
TCACTTCTTGCTAAGCTTGCAGCT
Found at i:47197295 original size:26 final size:26
Alignment explanation
Indices: 47197231--47197309 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
47197221 CAGCACTCAC
*
47197231 TTCTCGCTAAGCTTGCAGCTTTG-ACA
1 TTCTTGCTAAGCTTGCAGC-TTGCACA
47197257 -TCTTGCTAAGCTTGCAGCTTGCACA
1 TTCTTGCTAAGCTTGCAGCTTGCACA
*
47197282 TTTTTGCTAAGCTTGCAGCTTGCACA
1 TTCTTGCTAAGCTTGCAGCTTGCACA
47197308 TT
1 TT
47197310 GGAAAGCTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
24 3 0.06
25 20 0.41
26 26 0.53
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (26 bp):
TTCTTGCTAAGCTTGCAGCTTGCACA
Found at i:47209291 original size:3 final size:3
Alignment explanation
Indices: 47209283--47209308 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47209273 AATAGTGAAA
47209283 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
47209309 AACAAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:47211165 original size:18 final size:18
Alignment explanation
Indices: 47211144--47211180 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
47211134 TTATAGACCA
47211144 ACTTAACATTACATAGAG
1 ACTTAACATTACATAGAG
*
47211162 ACTTAACATTATATAGAG
1 ACTTAACATTACATAGAG
47211180 A
1 A
47211181 ACTCATCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (18 bp):
ACTTAACATTACATAGAG
Found at i:47212115 original size:2 final size:2
Alignment explanation
Indices: 47212108--47212145 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
47212098 CACATTCGGC
47212108 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47212146 AATGTATGCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47212732 original size:28 final size:28
Alignment explanation
Indices: 47212700--47212769 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
47212690 AATGAGATTG
47212700 GCACTAAGTGTGCGAGTTTAATTGCA-T-A
1 GCACTAAGTGTGCGAGTTTAATT--ATTAA
*
47212728 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
47212756 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
47212770 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
26 1 0.03
27 1 0.03
28 37 0.95
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:47224800 original size:13 final size:13
Alignment explanation
Indices: 47224782--47224820 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
47224772 AAGCAATCGT
*
47224782 ACACGAGTGTGTC
1 ACACGAGCGTGTC
47224795 ACACGAGCGTGTC
1 ACACGAGCGTGTC
* *
47224808 ACAAGGGCGTGTC
1 ACACGAGCGTGTC
47224821 CCTGTCGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.23, C:0.26, G:0.33, T:0.18
Consensus pattern (13 bp):
ACACGAGCGTGTC
Found at i:47230248 original size:46 final size:46
Alignment explanation
Indices: 47230198--47230458 Score: 305
Period size: 46 Copynumber: 5.7 Consensus size: 46
47230188 TGGTTGAGCA
* *
47230198 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACG
* *
47230244 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACG
* * * *
47230290 CCCGAGCTCATTGAGTTGAGTCCGAGTTCAATTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACG
* * * * *
47230336 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAA--A--CG
* *
47230383 TCCGAACTCATTGAGTTGAGTCCGAGTTCAATTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACG
*
47230429 CCCGAGA-TCGTTGAGTTGAGTCCGAGTTCA
1 TCCGA-ACTCGTTGAGTTGAGTCCGAGTTCA
47230459 CTTAGGGGCG
Statistics
Matches: 180, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
43 6 0.03
45 3 0.02
46 135 0.75
47 28 0.16
48 3 0.02
50 5 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAACG
Found at i:47237894 original size:46 final size:46
Alignment explanation
Indices: 47237844--47238109 Score: 265
Period size: 46 Copynumber: 5.7 Consensus size: 46
47237834 TGGTTGAGCA
*
47237844 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* * *
47237890 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AGG
* * *
47237935 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
* * * *
47237983 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
** * * *
47238029 TCCGAACTCGTTGAGTTGAGTTTGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--AGG
*
47238074 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
47238110 GGGGCGGGTT
Statistics
Matches: 179, Mismatches: 29, Indels: 22
0.78 0.13 0.10
Matches are distributed among these distances:
43 12 0.07
45 8 0.04
46 93 0.52
47 55 0.31
48 6 0.03
50 5 0.03
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGG
Found at i:47238000 original size:93 final size:93
Alignment explanation
Indices: 47237841--47238010 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
47237831 GGATGGTTGA
* *
47237841 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
47237906 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
47237934 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
47237999 TGAGTCCGAGTT
66 TGAGTCCGAGTT
47238011 TACTTATGGA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:47238100 original size:139 final size:139
Alignment explanation
Indices: 47237845--47238105 Score: 477
Period size: 139 Copynumber: 1.9 Consensus size: 139
47237835 GGTTGAGCAT
47237845 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAG
*
47237910 TCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGA
66 TCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGA
47237975 TGCGAACGC
131 TGCGAACGC
* *
47237984 CCGAGCTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAG
**
47238049 TTTGAGTTCGTGAGATGTAACTAGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCA
66 TCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCA
47238106 CTTAGGGGCG
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 117 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (139 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAG
TCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGA
TGCGAACGC
Found at i:47239719 original size:17 final size:17
Alignment explanation
Indices: 47239697--47239746 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
47239687 TAGACACCTA
*
47239697 TTATTTTTATTTTGTAT
1 TTATTTTTATTTTATAT
* *
47239714 TTATTTTTACTTTATTT
1 TTATTTTTATTTTATAT
*
47239731 TTATCTTTA-TTTATAT
1 TTATTTTTATTTTATAT
47239747 GTTGAAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (17 bp):
TTATTTTTATTTTATAT
Found at i:47239732 original size:12 final size:11
Alignment explanation
Indices: 47239702--47239742 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
47239692 ACCTATTATT
47239702 TTTATTTTGTA-
1 TTTATTTT-TAC
47239713 TTTATTTTTAC
1 TTTATTTTTAC
47239724 TTTATTTTTATC
1 TTTATTTTTA-C
47239736 TTTATTT
1 TTTATTT
47239743 ATATGTTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 2 0.07
11 18 0.64
12 8 0.29
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTATTTTTAC
Found at i:47243066 original size:6 final size:6
Alignment explanation
Indices: 47243041--47243115 Score: 60
Period size: 6 Copynumber: 11.8 Consensus size: 6
47243031 AGTGTGAAAG
** **
47243041 AAAGCAA AAAGAGA ATAAGAA AAAGAA AAATGAA ATTGAA AAAGAA AGTGAA
1 AAAG-AA AAAGA-A A-AAGAA AAAGAA AAA-GAA AAAGAA AAAGAA AAAGAA
* *
47243093 AAAGAA AAAGAG AAGGAA AAAGA
1 AAAGAA AAAGAA AAAGAA AAAGA
47243116 GATCGAGATC
Statistics
Matches: 53, Mismatches: 12, Indels: 7
0.74 0.17 0.10
Matches are distributed among these distances:
6 37 0.70
7 12 0.23
8 4 0.08
ACGTcount: A:0.71, C:0.01, G:0.21, T:0.07
Consensus pattern (6 bp):
AAAGAA
Found at i:47245222 original size:20 final size:21
Alignment explanation
Indices: 47245199--47245244 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
47245189 AGCTCCAACC
47245199 AGCTCACTTGAGCTC-ATTTT
1 AGCTCACTTGAGCTCGATTTT
**
47245219 AGCTCGTTTGAGCTCGATTTT
1 AGCTCACTTGAGCTCGATTTT
47245240 AGCTC
1 AGCTC
47245245 GTTCCAGCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (21 bp):
AGCTCACTTGAGCTCGATTTT
Found at i:47245240 original size:21 final size:20
Alignment explanation
Indices: 47245206--47245258 Score: 79
Period size: 21 Copynumber: 2.6 Consensus size: 20
47245196 ACCAGCTCAC
47245206 TTGAGCTCATTTTAGCTCGT
1 TTGAGCTCATTTTAGCTCGT
47245226 TTGAGCTCGATTTTAGCTCGT
1 TTGAGCTC-ATTTTAGCTCGT
**
47245247 TCCAGCTCATTT
1 TTGAGCTCATTT
47245259 CTTTTCCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (20 bp):
TTGAGCTCATTTTAGCTCGT
Found at i:47245245 original size:11 final size:11
Alignment explanation
Indices: 47245209--47245245 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
47245199 AGCTCACTTG
47245209 AGCTC-ATTTT
1 AGCTCGATTTT
*
47245219 AGCTCG-TTTG
1 AGCTCGATTTT
47245229 AGCTCGATTTT
1 AGCTCGATTTT
47245240 AGCTCG
1 AGCTCG
47245246 TTCCAGCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.41
Consensus pattern (11 bp):
AGCTCGATTTT
Found at i:47257883 original size:43 final size:43
Alignment explanation
Indices: 47257807--47257969 Score: 238
Period size: 43 Copynumber: 3.7 Consensus size: 43
47257797 CGCCGGTAAA
** * *
47257807 TTTAGCGGCGTTTTTATGAAAAAAGCGCCGCTAAAGACTAGGGCT
1 TTTAGCGGCGCCTTTA--AAAAAAACGCCGCTAAAGACCAGGGCT
*
47257852 TTTAGCGGCGCCTTTAAAAAAAACGCCGCTAAAGACCAGGTCT
1 TTTAGCGGCGCCTTTAAAAAAAACGCCGCTAAAGACCAGGGCT
47257895 TTTAGCGGCGCCTTTAAAAAAAACGCCG-TGAAAGACCAGGGCT
1 TTTAGCGGCGCCTTTAAAAAAAACGCCGCT-AAAGACCAGGGCT
*
47257938 TTTAGCGGCGCTTTTAAAAAAAACGCCGCTAA
1 TTTAGCGGCGCCTTTAAAAAAAACGCCGCTAA
47257970 TTTGCCCAGT
Statistics
Matches: 109, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
42 1 0.01
43 93 0.85
44 1 0.01
45 14 0.13
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (43 bp):
TTTAGCGGCGCCTTTAAAAAAAACGCCGCTAAAGACCAGGGCT
Found at i:47258292 original size:21 final size:21
Alignment explanation
Indices: 47258267--47258310 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
47258257 GCTCTGCTCT
47258267 GCCTCCC-TCGCTGCTGCCTCC
1 GCCTCCCGT-GCTGCTGCCTCC
47258288 GCCTCCCGTGCTGCTGCCTCC
1 GCCTCCCGTGCTGCTGCCTCC
47258309 GC
1 GC
47258311 TCTAAGTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.00, C:0.55, G:0.23, T:0.23
Consensus pattern (21 bp):
GCCTCCCGTGCTGCTGCCTCC
Found at i:47263801 original size:7 final size:7
Alignment explanation
Indices: 47263740--47263802 Score: 54
Period size: 7 Copynumber: 9.0 Consensus size: 7
47263730 TAAGACTCTG
*
47263740 ACCCTAT
1 ACCCTAA
*
47263747 ACCATAA
1 ACCCTAA
*
47263754 ACTCTAA
1 ACCCTAA
*
47263761 ACCCCAA
1 ACCCTAA
47263768 ACCCTAA
1 ACCCTAA
*
47263775 ACCCCAA
1 ACCCTAA
** *
47263782 ATACTAG
1 ACCCTAA
47263789 ACCCTAA
1 ACCCTAA
47263796 ACCCTAA
1 ACCCTAA
47263803 TTAACCCCTA
Statistics
Matches: 41, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.43, C:0.40, G:0.02, T:0.16
Consensus pattern (7 bp):
ACCCTAA
Found at i:47264214 original size:14 final size:13
Alignment explanation
Indices: 47264168--47264229 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 13
47264158 ACCTCAAACT
*
47264168 CTAAATCATAAAAC
1 CTAAATCAT-AACC
*
47264182 ATAAATCATCAACC
1 CTAAATCAT-AACC
47264196 CTAAATCATAACC
1 CTAAATCATAACC
*
47264209 CTTAAACCCATAACC
1 C-TAAA-TCATAACC
47264224 GCTAAA
1 -CTAAA
47264230 CCTATAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
13 5 0.12
14 23 0.57
15 11 0.28
16 1 0.03
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.21
Consensus pattern (13 bp):
CTAAATCATAACC
Found at i:47264490 original size:19 final size:20
Alignment explanation
Indices: 47264431--47264492 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 20
47264421 GTCTAATATA
*
47264431 AACATTAAAATAATATTAAGAT
1 AACA-TAAAAAAATATTAA-AT
47264453 AACTATATAAAAAAT-TTAAAT
1 AAC-ATA-AAAAAATATTAAAT
47264474 AA-ATAAAAAAATATTAAAT
1 AACATAAAAAAATATTAAAT
47264493 TAAAATGACA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
18 7 0.19
19 9 0.25
21 4 0.11
22 9 0.25
23 7 0.19
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (20 bp):
AACATAAAAAAATATTAAAT
Found at i:47264839 original size:74 final size:74
Alignment explanation
Indices: 47264716--47264948 Score: 367
Period size: 74 Copynumber: 3.1 Consensus size: 74
47264706 GCTCATAAAT
*** **
47264716 AACATTTTAGCGGCGTTTTTGGGGAAACGCCGCTACTGCCAAAGGAGCACATATAAAACGACATC
1 AACATTTTAGCGGCGTTTTTGCAAAAACGCCGCTACTGCCAAAGGAGCACATATAAAACGACGCC
*
47264781 ATTTTCCTC
66 GTTTTCCTC
* *
47264790 AACATTTTAGCGGCGTTTTTTCAAAAACGCCGCTACTGCCAAAGAAGCACATATAAAACGACGCC
1 AACATTTTAGCGGCGTTTTTGCAAAAACGCCGCTACTGCCAAAGGAGCACATATAAAACGACGCC
47264855 GTTTTCCTC
66 GTTTTCCTC
** *
47264864 AACATTTTAGCGGCGTTTTTGGGAAAACGCCGCTATTGCCAAAGGAGCACATATAAAACGACGCC
1 AACATTTTAGCGGCGTTTTTGCAAAAACGCCGCTACTGCCAAAGGAGCACATATAAAACGACGCC
47264929 GTTTTCCTC
66 GTTTTCCTC
47264938 AACATTTTAGC
1 AACATTTTAGC
47264949 AGTGTTTGTT
Statistics
Matches: 146, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 146 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (74 bp):
AACATTTTAGCGGCGTTTTTGCAAAAACGCCGCTACTGCCAAAGGAGCACATATAAAACGACGCC
GTTTTCCTC
Found at i:47265075 original size:114 final size:113
Alignment explanation
Indices: 47264873--47265299 Score: 579
Period size: 114 Copynumber: 3.8 Consensus size: 113
47264863 CAACATTTTA
47264873 GCGGCGTTTTTGGGAAAACGCCGCTATTGCCAAAGGAGCACATATAAAACGACGCCGTTTTCCTC
1 GCGGCGTTTTTGGGAAAACGCCGCTATTGCCAAAGGAGCACATATAAAACGACGCCGTTTTCCTC
* * * *
47264938 AACATTTTAGCAGTGTTTGTTCAAAAATGCTGCTAAAGTTTGATCTTCT
66 AACATTTTAGCGGCGTTTTTTCAAAAACGCTGCTAAAGTTTGATCTT-T
47264987 GCGGCGTTTTTGGGAAAACGCCGCTATTGCCAAAGGAGCACATATAAAACGACGCCGTTTTCCTC
1 GCGGCGTTTTTGGGAAAACGCCGCTATTGCCAAAGGAGCACATATAAAACGACGCCGTTTTCCTC
* *
47265052 AACATTTTAGCGGCATTTTTTCAAAAACGCCGCTAAAGTTTGATCTTTT
66 AACATTTTAGCGGCGTTTTTTCAAAAACGCTGCTAAAGTTTGATC-TTT
* * *
47265101 GCAGCGTTTTTGGGAAAATGCCGCTATTGCCAAAGGAGCACATATAAAACGACGTCGTTTTCCTC
1 GCGGCGTTTTTGGGAAAACGCCGCTATTGCCAAAGGAGCACATATAAAACGACGCCGTTTTCCTC
* * *
47265166 AACATTTTAGTGGCGTTTTGTTGAAAAACG-TCGCGAAAG-TTGATCTATT
66 AACATTTTAGCGGCGTTTT-TTCAAAAACGCT-GCTAAAGTTTGATCT-TT
* * * * * * * * * * *
47265215 GCGGTGTTTTCGTGAAAACGCCGCTACTGACAATGAAGCTCATATAAAATGACGTCGTTTTCCTT
1 GCGGCGTTTTTGGGAAAACGCCGCTATTGCCAAAGGAGCACATATAAAACGACGCCGTTTTCCTC
*
47265280 AACATTTTAGTGGCGTTTTT
66 AACATTTTAGCGGCGTTTTT
47265300 CTAAGAAACG
Statistics
Matches: 283, Mismatches: 26, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
113 2 0.01
114 264 0.93
115 17 0.06
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (113 bp):
GCGGCGTTTTTGGGAAAACGCCGCTATTGCCAAAGGAGCACATATAAAACGACGCCGTTTTCCTC
AACATTTTAGCGGCGTTTTTTCAAAAACGCTGCTAAAGTTTGATCTTT
Found at i:47270427 original size:27 final size:27
Alignment explanation
Indices: 47270398--47270717 Score: 267
Period size: 27 Copynumber: 11.9 Consensus size: 27
47270388 AGACCCCAGG
* *
47270398 TTGTAAAATTATCAAAATACCCTCGGG
1 TTGTAAAATTATCGAAATACCCTCGGT
* * *
47270425 TTGTAAAATTA-CTGAAAAACCCCCGAT
1 TTGTAAAATTATC-GAAATACCCTCGGT
* * ** * *
47270452 TTATGAAATTATTAAAATACCCCCGAT
1 TTGTAAAATTATCGAAATACCCTCGGT
*
47270479 TTGTAAAATTATCGAAATATCCCTAGG-
1 TTGTAAAATTATCGAAATA-CCCTCGGT
* *
47270506 TTGTAAAATTATCAAAATACCCTCGGG
1 TTGTAAAATTATCGAAATACCCTCGGT
* *
47270533 TTGTAAAATTATTGAAATACCC-CTGAT
1 TTGTAAAATTATCGAAATACCCTC-GGT
* * * *
47270560 TTTTAAAATTACCGAAATACCCCCGAT
1 TTGTAAAATTATCGAAATACCCTCGGT
*
47270587 TTGTAAAATTATCGAAATACCC-CTAGT
1 TTGTAAAATTATCGAAATACCCTC-GGT
* *
47270614 TTGTAAAATTACCGAAATACCCTCTGT
1 TTGTAAAATTATCGAAATACCCTCGGT
* * *
47270641 TTGTAAAATTACCAAAACACCC-CTGGT
1 TTGTAAAATTATCGAAATACCCTC-GGT
*
47270668 TTGTAAAATTA-CTGAAATACCCT-TGT
1 TTGTAAAATTATC-GAAATACCCTCGGT
* *
47270694 AGTGTAAAATTACCGAAATACCCT
1 -TTGTAAAATTATCGAAATACCCT
47270718 TGTAGGGTAA
Statistics
Matches: 241, Mismatches: 39, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
26 13 0.05
27 221 0.92
28 7 0.03
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTATCGAAATACCCTCGGT
Found at i:47270584 original size:108 final size:108
Alignment explanation
Indices: 47270390--47270716 Score: 426
Period size: 108 Copynumber: 3.0 Consensus size: 108
47270380 GGTCGTTAAG
*
47270390 ACCCC-AGGTTGTAAAATTATCAAAATACCCTCGGGTTGTAAAATTACTGAAAAACCCCCGATTT
1 ACCCCTAGGTTGTAAAATTATCAAAATACCCTCGGGTTGTAAAATTACTGAAAAACCCCTGATTT
* * *
47270454 ATGAAATTATTAAAATACCCCCGATTTGTAAAATTATCGAAAT
66 ATAAAATTACTGAAATACCCCCGATTTGTAAAATTATCGAAAT
* * *
47270497 ATCCCTAGGTTGTAAAATTATCAAAATACCCTCGGGTTGTAAAATTATTGAAATACCCCTGATTT
1 ACCCCTAGGTTGTAAAATTATCAAAATACCCTCGGGTTGTAAAATTACTGAAAAACCCCTGATTT
* *
47270562 TTAAAATTACCGAAATACCCCCGATTTGTAAAATTATCGAAAT
66 ATAAAATTACTGAAATACCCCCGATTTGTAAAATTATCGAAAT
* * * * * * *
47270605 ACCCCTAGTTTGTAAAATTACCGAAATACCCTCTGTTTGTAAAATTAC-CAAAACACCCCTGGTT
1 ACCCCTAGGTTGTAAAATTATCAAAATACCCTCGGGTTGTAAAATTACTGAAAA-ACCCCTGATT
* ** * *
47270669 TGTAAAATTACTGAAATACCCTTG-TAGTGTAAAATTACCGAAAT
65 TATAAAATTACTGAAATACCCCCGAT-TTGTAAAATTATCGAAAT
47270713 ACCC
1 ACCC
47270717 TTGTAGGGTA
Statistics
Matches: 192, Mismatches: 25, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
107 8 0.04
108 184 0.96
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.30
Consensus pattern (108 bp):
ACCCCTAGGTTGTAAAATTATCAAAATACCCTCGGGTTGTAAAATTACTGAAAAACCCCTGATTT
ATAAAATTACTGAAATACCCCCGATTTGTAAAATTATCGAAAT
Found at i:47274571 original size:27 final size:27
Alignment explanation
Indices: 47274533--47274850 Score: 164
Period size: 27 Copynumber: 11.9 Consensus size: 27
47274523 AAGACCTCGG
*
47274533 GTTGTAAAATTACCGAAATTCCCCTTA
1 GTTGTAAAATTACCGAAATTACCCTTA
* * *
47274560 GTTGTAAAATTACTGAAA-TACCATTGG
1 GTTGTAAAATTACCGAAATTACCCTT-A
* * *
47274587 GTTGTAAATTTATCGAAA-TACCCTCGA
1 GTTGTAAAATTACCGAAATTACCCT-TA
* * *
47274614 GTTATAAAATTACTGAAA-TATCCCTGA
1 GTTGTAAAATTACCGAAATTA-CCCTTA
* * * *
47274641 TTTGTGAAATTACC-AAAATATCCC-CA
1 GTTGTAAAATTACCGAAATTA-CCCTTA
*
47274667 GTTTGTAAAATTATCGAAA-TACCC-TA
1 G-TTGTAAAATTACCGAAATTACCCTTA
* * **
47274693 GGTTGTAAAATTA-CTAAAATACCCTCGG
1 -GTTGTAAAATTACCGAAATTACCCT-TA
** *
47274721 GTTGTAAAATTATTGAAA-TACCC-CA
1 GTTGTAAAATTACCGAAATTACCCTTA
** *
47274746 GTTTGTAAAATTATTGAAA-TACCCTTT
1 G-TTGTAAAATTACCGAAATTACCCTTA
47274773 GTTTGTAAAATTACCGAAA-TACCCTCT-
1 G-TTGTAAAATTACCGAAATTACCCT-TA
*
47274800 GTTTGTAAAATTATCGAAA-TACCCTTA
1 G-TTGTAAAATTACCGAAATTACCCTTA
*
47274827 -TAGTGTAAAATTACC-AAAATACCC
1 GT--TGTAAAATTACCGAAATTACCC
47274851 CTGTAAGGTA
Statistics
Matches: 237, Mismatches: 36, Indels: 36
0.77 0.12 0.12
Matches are distributed among these distances:
25 6 0.03
26 55 0.23
27 165 0.70
28 11 0.05
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (27 bp):
GTTGTAAAATTACCGAAATTACCCTTA
Found at i:47274622 original size:54 final size:53
Alignment explanation
Indices: 47274531--47274850 Score: 249
Period size: 54 Copynumber: 6.0 Consensus size: 53
47274521 TTAAGACCTC
* * * *
47274531 GGGTTGTAAAATTACCGAAATTCCC-CTTAGTTGTAAAATTACTGAAATACCATT
1 GGGTTGTAAAATTATCGAAATACCCTC-GAGTTGTAAAATTACTGAAATACC-CT
* *
47274585 GGGTTGTAAATTTATCGAAATACCCTCGAGTTATAAAATTACTGAAATATCCCT
1 GGGTTGTAAAATTATCGAAATACCCTCGAGTTGTAAAATTACTGAAATA-CCCT
** * * *
47274639 GATTTGTGAAATTACCAAAATATCCC-C-AGTTTGTAAAATTA-TCGAAATACCCT
1 GGGTTGTAAAATTATCGAAATA-CCCTCGAG-TTGTAAAATTACT-GAAATACCCT
* * * * *
47274692 AGGTTGTAAAATTA-CTAAAATACCCTCGGGTTGTAAAATTATTGAAATACCCC
1 GGGTTGTAAAATTATC-GAAATACCCTCGAGTTGTAAAATTACTGAAATACCCT
* * * * * *
47274745 AGTTTGTAAAATTATTGAAATACCCTTTG-TTTGTAAAATTACCGAAATACCCT
1 GGGTTGTAAAATTATCGAAATACCC-TCGAGTTGTAAAATTACTGAAATACCCT
* * ** **
47274798 CTGTTTGTAAAATTATCGAAATACCCTTATAG-TGTAAAATTACCAAAATACCC
1 -GGGTTGTAAAATTATCGAAATACCC-TCGAGTTGTAAAATTACTGAAATACCC
47274851 CTGTAAGGTA
Statistics
Matches: 220, Mismatches: 33, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
52 4 0.02
53 85 0.39
54 125 0.57
55 6 0.03
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (53 bp):
GGGTTGTAAAATTATCGAAATACCCTCGAGTTGTAAAATTACTGAAATACCCT
Found at i:47274726 original size:53 final size:52
Alignment explanation
Indices: 47274560--47274812 Score: 206
Period size: 53 Copynumber: 4.7 Consensus size: 52
47274550 ATTCCCCTTA
* * * * * *
47274560 GTTGTAAAATTACTGAAATACCATTGGGTTGTAAATTTA-TCGAAATACCCTCGA
1 GTTGTAAAATTAC-GAAATACC-CTAGTTTGTAAAATTACT-AAAATACCCTCGG
* * * *
47274614 GTTATAAAATTACTGAAATATCCCT-GATTTGTGAAATTACCAAAATATCCC-CAG
1 GTTGTAAAATTAC-GAAATA-CCCTAG-TTTGTAAAATTACTAAAATA-CCCTCGG
* *
47274668 TTTGTAAAATTATCGAAATACCCTAGGTTGTAAAATTACTAAAATACCCTCGG
1 GTTGTAAAATTA-CGAAATACCCTAGTTTGTAAAATTACTAAAATACCCTCGG
* * * * **
47274721 GTTGTAAAATTATTGAAATACCCCAGTTTGTAAAATTATTGAAATACCCTTTG
1 GTTGTAAAATTA-CGAAATACCCTAGTTTGTAAAATTACTAAAATACCCTCGG
* *
47274774 TTTGTAAAATTACCGAAATACCCTCTGTTTGTAAAATTA
1 GTTGTAAAATTA-CGAAATACCCT-AGTTTGTAAAATTA
47274813 TCGAAATACC
Statistics
Matches: 163, Mismatches: 28, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
52 3 0.02
53 89 0.55
54 65 0.40
55 6 0.04
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (52 bp):
GTTGTAAAATTACGAAATACCCTAGTTTGTAAAATTACTAAAATACCCTCGG
Found at i:47274861 original size:27 final size:27
Alignment explanation
Indices: 47274777--47274864 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
47274767 CCCTTTGTTT
**
47274777 GTAAAATTACCGAAATACCCTCTGT-TT
1 GTAAAATTACCGAAATACCC-CTGTAAG
*
47274804 GTAAAATTATCGAAATA-CCCT-TATAG
1 GTAAAATTACCGAAATACCCCTGTA-AG
*
47274830 TGTAAAATTACCAAAATACCCCTGTAAG
1 -GTAAAATTACCGAAATACCCCTGTAAG
47274858 GTAAAAT
1 GTAAAAT
47274865 AACTGTTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
24 1 0.02
25 2 0.04
26 2 0.04
27 38 0.75
28 6 0.12
29 2 0.04
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCCTGTAAG
Found at i:47274862 original size:54 final size:53
Alignment explanation
Indices: 47274750--47274864 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 53
47274740 ACCCCAGTTT
* * **
47274750 GTAAAATTATTGAAATACCCTTTGTTTGTAAAATTACCGAAATACCCTCTGTTT
1 GTAAAATTATCGAAATACCCTTTG-TTGTAAAATTACCAAAATACCCTCTGTAG
47274804 GTAAAATTATCGAAATACCCTTATAG-TGTAAAATTACCAAAATACCC-CTGTAAG
1 GTAAAATTATCGAAATACCCTT-T-GTTGTAAAATTACCAAAATACCCTCTGT-AG
47274858 GTAAAAT
1 GTAAAAT
47274865 AACTGTTTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
53 4 0.07
54 48 0.89
55 1 0.02
56 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (53 bp):
GTAAAATTATCGAAATACCCTTTGTTGTAAAATTACCAAAATACCCTCTGTAG
Found at i:47278723 original size:27 final size:27
Alignment explanation
Indices: 47278685--47278979 Score: 229
Period size: 27 Copynumber: 11.0 Consensus size: 27
47278675 GTTAAGACTG
47278685 TAGGTTGTAAAATTATCGAAATACCCC
1 TAGGTTGTAAAATTATCGAAATACCCC
*
47278712 TAGGTTGTAAAATTATCGAAATA-CCA
1 TAGGTTGTAAAATTATCGAAATACCCC
* *
47278738 TCGGGTTGTAAAA-TGTCTGAAATA-CCC
1 T-AGGTTGTAAAATTATC-GAAATACCCC
* * * *
47278765 TCGATTTGTGAAATTACCGAAATACCCC
1 TAG-GTTGTAAAATTATCGAAATACCCC
* * *
47278793 -AGTTTATAAAATTATCGAAATACCCT
1 TAGGTTGTAAAATTATCGAAATACCCC
47278819 TAGGTTGTAAAATTA-CTGAAATACCCC
1 TAGGTTGTAAAATTATC-GAAATACCCC
*
47278846 TAGGTTGTAAAATTA-CTGAAATA-CAC
1 TAGGTTGTAAAATTATC-GAAATACCCC
*
47278872 TCGGTTTGTAAAATTA-CTGAAATA-CCC
1 TAGG-TTGTAAAATTATC-GAAATACCCC
* * *
47278899 TCAGTTTGTAAAATCATCGAACTACCCC
1 T-AGGTTGTAAAATTATCGAAATACCCC
*
47278927 T-GGTTTGTAAACTTA-CTGAAATA-CCC
1 TAGG-TTGTAAAATTATC-GAAATACCCC
* *
47278953 T-TGTAGTGTAAAATTATAGAAATACCC
1 TAGGT--TGTAAAATTATCGAAATACCC
47278980 TGTAGGGTAA
Statistics
Matches: 220, Mismatches: 31, Indels: 33
0.77 0.11 0.12
Matches are distributed among these distances:
25 1 0.00
26 40 0.18
27 166 0.75
28 13 0.06
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (27 bp):
TAGGTTGTAAAATTATCGAAATACCCC
Found at i:47278880 original size:107 final size:109
Alignment explanation
Indices: 47278692--47278952 Score: 354
Period size: 107 Copynumber: 2.4 Consensus size: 109
47278682 CTGTAGGTTG
*
47278692 TAAAATTATCGAAATACCCCTAGGTTGTAAAATTA-TCGAAATA-CCATCGGGTTGTAAAATGTC
1 TAAAATTATCGAAATACCCCTAGGTTGTAAAATTACT-GAAATACCCATCAGGTTGTAAAATGTC
* *
47278755 TGAAATACCCTCGATTTGTGAAATTACCGAAATACCC-CAGTTTA
65 TGAAATACACTCGATTTGTAAAATTACCGAAATACCCTCAGTTTA
* *
47278799 TAAAATTATCGAAATACCCTTAGGTTGTAAAATTACTGAAATACCCCT-AGGTTGTAAAAT-TAC
1 TAAAATTATCGAAATACCCCTAGGTTGTAAAATTACTGAAATACCCATCAGGTTGTAAAATGT-C
* * *
47278862 TGAAATACACTCGGTTTGTAAAATTACTGAAATACCCTCAGTTTG
65 TGAAATACACTCGATTTGTAAAATTACCGAAATACCCTCAGTTTA
* * *
47278907 TAAAATCATCGAACTACCCCT-GGTTTGTAAACTTACTGAAATACCC
1 TAAAATTATCGAAATACCCCTAGG-TTGTAAAATTACTGAAATACCC
47278953 TTGTAGTGTA
Statistics
Matches: 137, Mismatches: 12, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
106 1 0.01
107 87 0.64
108 49 0.36
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (109 bp):
TAAAATTATCGAAATACCCCTAGGTTGTAAAATTACTGAAATACCCATCAGGTTGTAAAATGTCT
GAAATACACTCGATTTGTAAAATTACCGAAATACCCTCAGTTTA
Found at i:47278881 original size:54 final size:54
Alignment explanation
Indices: 47278685--47278980 Score: 272
Period size: 54 Copynumber: 5.5 Consensus size: 54
47278675 GTTAAGACTG
* *
47278685 TAGGTTGTAAAATTATCGAAATACCCCTAGG-TTGTAAAATTA-TCGAAATA-CCA
1 TAGGTTGTAAAATTATCGAAATA-CCCTCGGTTTGTAAAATTACT-GAAATACCCC
* * * * *
47278738 TCGGGTTGTAAAA-TGTCTGAAATACCCTCGATTTGTGAAATTACCGAAATACCCC
1 T-AGGTTGTAAAATTATC-GAAATACCCTCGGTTTGTAAAATTACTGAAATACCCC
* * *
47278793 -AGTTTATAAAATTATCGAAATACCCTTAGG-TTGTAAAATTACTGAAATACCCC
1 TAGGTTGTAAAATTATCGAAATACCC-TCGGTTTGTAAAATTACTGAAATACCCC
*
47278846 TAGGTTGTAAAATTA-CTGAAATACACTCGGTTTGTAAAATTACTGAAATA-CCC
1 TAGGTTGTAAAATTATC-GAAATACCCTCGGTTTGTAAAATTACTGAAATACCCC
* * * *
47278899 TCAGTTTGTAAAATCATCGAACTACCC-CTGGTTTGTAAACTTACTGAAATA-CCC
1 T-AGGTTGTAAAATTATCGAAATACCCTC-GGTTTGTAAAATTACTGAAATACCCC
* *
47278953 T-TGTAGTGTAAAATTATAGAAATACCCT
1 TAGGT--TGTAAAATTATCGAAATACCCT
47278981 GTAGGGTAAA
Statistics
Matches: 198, Mismatches: 29, Indels: 30
0.77 0.11 0.12
Matches are distributed among these distances:
52 1 0.01
53 56 0.28
54 138 0.70
55 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (54 bp):
TAGGTTGTAAAATTATCGAAATACCCTCGGTTTGTAAAATTACTGAAATACCCC
Found at i:47278911 original size:81 final size:81
Alignment explanation
Indices: 47278685--47278980 Score: 295
Period size: 81 Copynumber: 3.7 Consensus size: 81
47278675 GTTAAGACTG
* * *
47278685 TAGGTTGTAAAATTA-TCGAAATACCCCTAGG-TTGTAAAATTATCGAAATACCATCGGGTTGTA
1 TAGGTTGTAAAATTACT-GAAATA-CCCTCGGTTTGTAAAATTATCGAAATACCCTCAGGTTGTA
47278748 AAATGT-CTGAAATA-CCC
64 AAAT-TACTGAAATACCCC
* * * * * * *
47278765 TCGATTTGTGAAATTACCGAAATACCC-CAGTTTATAAAATTATCGAAATACCCTTAGGTTGTAA
1 TAG-GTTGTAAAATTACTGAAATACCCTCGGTTTGTAAAATTATCGAAATACCCTCAGGTTGTAA
47278829 AATTACTGAAATACCCC
65 AATTACTGAAATACCCC
* *
47278846 TAGGTTGTAAAATTACTGAAATACACTCGGTTTGTAAAATTA-CTGAAATACCCTCAGTTTGTAA
1 TAGGTTGTAAAATTACTGAAATACCCTCGGTTTGTAAAATTATC-GAAATACCCTCAGGTTGTAA
* *
47278910 AATCA-TCGAACTACCCC
65 AATTACT-GAAATACCCC
* * * *
47278927 T-GGTTTGTAAACTTACTGAAATACCCT-TGTAGTGTAAAATTATAGAAATACCCT
1 TAGG-TTGTAAAATTACTGAAATACCCTCGGT-TTGTAAAATTATCGAAATACCCT
47278981 GTAGGGTAAA
Statistics
Matches: 179, Mismatches: 26, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
79 2 0.01
80 70 0.39
81 107 0.60
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (81 bp):
TAGGTTGTAAAATTACTGAAATACCCTCGGTTTGTAAAATTATCGAAATACCCTCAGGTTGTAAA
ATTACTGAAATACCCC
Found at i:47281061 original size:40 final size:40
Alignment explanation
Indices: 47280959--47281063 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
47280949 TAATCCACAA
* * * *** *
47280959 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
47280999 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
47281039 GCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCC
47281064 TTCGGGTCTT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:47281066 original size:14 final size:14
Alignment explanation
Indices: 47281047--47281078 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
47281037 TCGCACGAAT
47281047 GCCTTCGGGTCTTA
1 GCCTTCGGGTCTTA
47281061 GCCTTCGGGTCTTA
1 GCCTTCGGGTCTTA
47281075 GCCT
1 GCCT
47281079 AGATATAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.31, G:0.28, T:0.34
Consensus pattern (14 bp):
GCCTTCGGGTCTTA
Found at i:47281089 original size:54 final size:54
Alignment explanation
Indices: 47281007--47281117 Score: 204
Period size: 54 Copynumber: 2.1 Consensus size: 54
47280997 TTGCACAAAT
*
47281007 GCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTA
1 GCCTTCGGGTCTTAGCCCAGATATAACAACTCGCACGAATGCCTTCGGGTCTTA
*
47281061 GCCTTCGGGTCTTAGCCTAGATATAACAACTCGCACGAATGCCTTCGGGTCTTA
1 GCCTTCGGGTCTTAGCCCAGATATAACAACTCGCACGAATGCCTTCGGGTCTTA
47281115 GCC
1 GCC
47281118 CGGATATGAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (54 bp):
GCCTTCGGGTCTTAGCCCAGATATAACAACTCGCACGAATGCCTTCGGGTCTTA
Found at i:47281116 original size:40 final size:40
Alignment explanation
Indices: 47281061--47281158 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 40
47281051 TCGGGTCTTA
* * *
47281061 GCCTTCGGGTCTTAGCCTAGATAT-AACAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCAGATATGAAC-ACTAGCACAAAT
* * *
47281101 GCCTTCGGGTCTTAGCCCGGATATGATCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCAGATATGAACACTAGCACAAAT
*
47281141 GCCTTCGGGACTTAGCCC
1 GCCTTCGGGTCTTAGCCC
47281159 GGGTATCATT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 48 0.96
41 2 0.04
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCAGATATGAACACTAGCACAAAT
Found at i:47289110 original size:40 final size:39
Alignment explanation
Indices: 47289066--47289257 Score: 197
Period size: 40 Copynumber: 4.7 Consensus size: 39
47289056 TAATCCACAA
* * *** *
47289066 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTC
47289106 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
47289146 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGATATAACAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCC-G---GATATAACAACTC
* *
47289190 GCACGAATGCCTTCGGGTCTTAGCCCGGATATGATC-ACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAT-AACAACTC
* *
47289230 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCA-CAATGCCTTCGGGTCTTAGCCCGG
47289258 GTATCATTCA
Statistics
Matches: 134, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
40 89 0.66
41 5 0.04
43 1 0.01
44 39 0.29
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:47289196 original size:44 final size:44
Alignment explanation
Indices: 47289101--47289220 Score: 194
Period size: 44 Copynumber: 2.8 Consensus size: 44
47289091 CGGATTTGGT
* *
47289101 AACTTGCACAAATGCCTTCGGGTCTTAGCCC-G---GATATAAC
1 AACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAGATATAAC
47289141 AACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAGATATAAC
1 AACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAGATATAAC
47289185 AACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATA
1 AACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATA
47289221 TGATCACTAG
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
40 29 0.39
41 1 0.01
44 44 0.59
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (44 bp):
AACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAGATATAAC
Found at i:47289216 original size:84 final size:84
Alignment explanation
Indices: 47289101--47289257 Score: 235
Period size: 84 Copynumber: 1.9 Consensus size: 84
47289091 CGGATTTGGT
* * * *
47289101 AACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATAT-AACAACTCGCACGAATGCCTTCGGGTC
1 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATGAAC-ACTAGCACAAATGCCTTCGGGAC
47289165 TTAGCCCGGATAGATATAAC
65 TTAGCCCGGATAGATATAAC
* * *
47289185 AACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATGATCACTAGCATAAATGCCTTCGGGACT
1 AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATGAACACTAGCACAAATGCCTTCGGGACT
47289250 TAGCCCGG
66 TAGCCCGG
47289258 GTATCATTCA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
84 63 0.97
85 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (84 bp):
AACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATGAACACTAGCACAAATGCCTTCGGGACT
TAGCCCGGATAGATATAAC
Found at i:47294864 original size:40 final size:40
Alignment explanation
Indices: 47294819--47294985 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
47294809 CGGAATATAA
47294819 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
47294859 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
47294899 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
47294939 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
47294978 CCGGATAT
1 CCGGATAT
47294986 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:47295832 original size:17 final size:19
Alignment explanation
Indices: 47295809--47295854 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
47295799 AAGAAGCATG
47295809 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
47295827 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
47295845 AATCATGCTC
1 AATCATGCTC
47295855 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:47302867 original size:40 final size:40
Alignment explanation
Indices: 47302822--47302988 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
47302812 CGGAATATAA
47302822 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
47302862 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
47302902 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
47302942 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
47302981 CCGGATAT
1 CCGGATAT
47302989 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:47303830 original size:17 final size:19
Alignment explanation
Indices: 47303807--47303852 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
47303797 AAGAAGCATG
47303807 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
47303825 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
47303843 AATCATGCTC
1 AATCATGCTC
47303853 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:47305198 original size:29 final size:29
Alignment explanation
Indices: 47305156--47305213 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
47305146 TTACGAAAAA
*
47305156 AAAAATATTAATGTATTATCTGGAAGGAT
1 AAAAAGATTAATGTATTATCTGGAAGGAT
47305185 AAAAAGATTAATGTATTATCTGGAAGGAT
1 AAAAAGATTAATGTATTATCTGGAAGGAT
47305214 TTTAAGTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.33
Consensus pattern (29 bp):
AAAAAGATTAATGTATTATCTGGAAGGAT
Found at i:47310091 original size:25 final size:25
Alignment explanation
Indices: 47310063--47310130 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
47310053 CTCTTTTAAT
*
47310063 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
47310088 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
47310113 AACTGGGGCATAGCCCTT
1 AACTGGGGCAAAGCCCTT
47310131 ACTGGGGCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:47310136 original size:17 final size:17
Alignment explanation
Indices: 47310114--47310147 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
47310104 TTTTCGGTAA
47310114 ACTGGGGCATAGCCCTT
1 ACTGGGGCATAGCCCTT
47310131 ACTGGGGCATAGCCCTT
1 ACTGGGGCATAGCCCTT
47310148 TTACACTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.29, G:0.29, T:0.24
Consensus pattern (17 bp):
ACTGGGGCATAGCCCTT
Found at i:47311106 original size:27 final size:27
Alignment explanation
Indices: 47311080--47311263 Score: 129
Period size: 27 Copynumber: 6.7 Consensus size: 27
47311070 ATCTACAAAC
* *
47311080 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTATAAAT
* *
47311107 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTTC-AGTAA-TTTTATAAA-T
* *
47311136 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
* ** *
47311163 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
** *
47311190 TGAGGGTATTTCGGTAATTTTATAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
* * ** * **
47311217 TAGGGGTATTTTGGTAATTCTAT-CCT
1 CAAGGGTATTTCAGTAATTTTATAAAT
*
47311243 ACAGGGGTATTTCAGTAATTT
1 -CAAGGGTATTTCAGTAATTT
47311264 CACAATCGAG
Statistics
Matches: 124, Mismatches: 28, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
26 1 0.01
27 94 0.76
28 15 0.12
29 14 0.11
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTATAAAT
Found at i:47311171 original size:56 final size:54
Alignment explanation
Indices: 47311073--47311263 Score: 179
Period size: 54 Copynumber: 3.5 Consensus size: 54
47311063 TTGGTAAATC
* * **
47311073 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAATCAGGGGTATTT-TGATAA-TTT
* * *
47311128 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAATCAGGGGTATTTTGATAATTT
** * * * * *
47311183 TACAAATTGAGGGTATTTCGGTAATTTTATAAATTAGGGGTATTTTGGTAATTC
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAATCAGGGGTATTTTGATAATTT
** *
47311237 TATCCTA-CAGGGGTATTTCAGTAATTT
1 TA-CAAATCAAGGGTATTTCAGTAATTT
47311264 CACAATCGAG
Statistics
Matches: 113, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
54 60 0.53
55 16 0.14
56 37 0.33
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAATCAGGGGTATTTTGATAATTT
Found at i:47311301 original size:27 final size:27
Alignment explanation
Indices: 47311267--47311385 Score: 159
Period size: 27 Copynumber: 4.4 Consensus size: 27
47311257 GTAATTTCAC
**
47311267 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
47311294 AA-CTGAGGGTAAAATGGTAATTTTATA
1 AATC-GAGGGTAAAATGGTAATTTTGTA
*
47311321 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * *
47311348 AATCGAGGGTAAAATGGTAAATCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
47311375 AATCGAGGGTA
1 AATCGAGGGTA
47311386 CTTTGATAAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
26 1 0.01
27 81 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:47311341 original size:54 final size:54
Alignment explanation
Indices: 47311267--47311385 Score: 177
Period size: 54 Copynumber: 2.2 Consensus size: 54
47311257 GTAATTTCAC
* * *
47311267 AATCGAGGGTAAAACAGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAATGGTAAATCTATA
**
47311321 AATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAAATCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAAATCTATA
47311375 AATCGAGGGTA
1 AATCGAGGGTA
47311386 CTTTGATAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 58 0.98
55 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAAATCTATA
Found at i:47313573 original size:40 final size:40
Alignment explanation
Indices: 47313508--47313752 Score: 356
Period size: 40 Copynumber: 6.2 Consensus size: 40
47313498 TCTTCGGAAT
* ** *
47313508 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
47313547 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
47313587 TTAGCCCGG-TATAACAACTCGCAC-AATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
47313625 TTAGCCC-GATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
47313664 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
47313704 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
47313744 TTAGCCCGG
1 TTAGCCCGG
47313753 GTATCATTCA
Statistics
Matches: 189, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
37 1 0.01
38 36 0.19
39 38 0.20
40 113 0.60
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:47313705 original size:117 final size:119
Alignment explanation
Indices: 47313499--47313751 Score: 359
Period size: 117 Copynumber: 2.1 Consensus size: 119
47313489 AACCAAGTTT
* * * * * * *
47313499 CTTCGGAATTTAGCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCA
1 CTTCGGGACTTAGCCCGATATAACAACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAACA
* *
47313564 ACTCGCACAAATGCCTTCGGGTCTTAGCCCGG-TATAA-CAACTCGCA-CAATGC
66 ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
* ** *
47313616 CTTCGGGTCTTAGCCCGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACA
1 CTTCGGGACTTAGCCCGATATAACAACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAACA
47313681 ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGC
66 ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGC
47313735 CTTCGGGACTTAGCCCG
1 CTTCGGGACTTAGCCCG
47313752 GGTATCATTC
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
117 86 0.72
118 11 0.09
119 22 0.18
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (119 bp):
CTTCGGGACTTAGCCCGATATAACAACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAACA
ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGC
Found at i:47321753 original size:40 final size:40
Alignment explanation
Indices: 47321688--47321935 Score: 383
Period size: 40 Copynumber: 6.2 Consensus size: 40
47321678 TCTTCGGAAT
* ** *
47321688 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
47321727 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
47321767 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
47321807 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
47321847 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
47321887 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
47321927 TTAGCCCGG
1 TTAGCCCGG
47321936 GTATCATTCA
Statistics
Matches: 194, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 3 0.02
40 190 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:47326141 original size:40 final size:40
Alignment explanation
Indices: 47326104--47326289 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
47326094 GCTACTCGTT
* *
47326104 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
47326144 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
47326184 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
47326224 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
47326265 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47326290 CATCATTCGA
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 114 0.88
41 12 0.09
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:47330945 original size:23 final size:21
Alignment explanation
Indices: 47330914--47330955 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
47330904 TATATTTCAA
*
47330914 AAGATAATAATGAAAATAAGTCG
1 AAGAAAATAAT-AAAA-AAGTCG
47330937 AAGAAAATAATAAAAAAGT
1 AAGAAAATAATAAAAAAGT
47330956 AAAGCAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 4 0.22
23 10 0.56
ACGTcount: A:0.64, C:0.02, G:0.14, T:0.19
Consensus pattern (21 bp):
AAGAAAATAATAAAAAAGTCG
Found at i:47335625 original size:30 final size:30
Alignment explanation
Indices: 47335575--47335632 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
47335565 CACGGGCTAC
*
47335575 CACATGGGTGTGTGGCCAGCCTGTGTGGCT
1 CACATGGGTGTGTGGCCAGCCCGTGTGGCT
47335605 CACATGGGCT-TGT-GCTCAGCCCGTGTGG
1 CACATGGG-TGTGTGGC-CAGCCCGTGTGG
47335633 AAATGGTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 22 0.88
31 1 0.04
ACGTcount: A:0.10, C:0.26, G:0.38, T:0.26
Consensus pattern (30 bp):
CACATGGGTGTGTGGCCAGCCCGTGTGGCT
Found at i:47336856 original size:27 final size:27
Alignment explanation
Indices: 47336791--47336970 Score: 238
Period size: 27 Copynumber: 6.7 Consensus size: 27
47336781 TTTGGTTTAC
47336791 AAAATTACCAAAATACCC-T-GCTTTGT
1 AAAATTACCAAAATACCCTTAG-TTTGT
* * *
47336817 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCTTAGTTTGT
*
47336844 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
47336871 AAAATTACCAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* *
47336898 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* *
47336925 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* **
47336952 GAAATTACTGAAATACCCT
1 AAAATTACCAAAATACCCT
47336971 CGACCTGTAA
Statistics
Matches: 137, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
26 17 0.12
27 119 0.87
28 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAGTTTGT
Found at i:47336980 original size:81 final size:81
Alignment explanation
Indices: 47336791--47337014 Score: 251
Period size: 81 Copynumber: 2.8 Consensus size: 81
47336781 TTTGGTTTAC
* * *
47336791 AAAATTACCAAAATACCCT--GCTTTGTAAAATTA-CTAAAATACCCTTGGTTTATAAAATTACC
1 AAAATTACCAAAATACCCTGAGC-CTGTAAAATTATC-AAAATACCCTTAGTTTGTAAAATTACC
*
47336853 AAAATACCCCTAGTTTGT
64 AAAATACCCCTAATTTGT
* ** *
47336871 AAAATTACCAAAATACCCTTAGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTGAGCCTGTAAAATTATCAAAATACCCTTAGTTTGTAAAATTACCAA
47336936 AATACCCCTAATTTGT
66 AATACCCCTAATTTGT
* ** ** *
47336952 GAAATTACTGAAATACCCTCGA-CCTGTAAAATTATTGAAATA-CCTTCGATTTGTAAAATTACC
1 AAAATTACCAAAATACCCT-GAGCCTGTAAAATTATCAAAATACCCTTAG-TTTGTAAAATTACC
47337015 GTTTTACCCT
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
80 23 0.19
81 98 0.79
82 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTGAGCCTGTAAAATTATCAAAATACCCTTAGTTTGTAAAATTACCAA
AATACCCCTAATTTGT
Found at i:47336983 original size:27 final size:27
Alignment explanation
Indices: 47336953--47337013 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
47336943 CTAATTTGTG
47336953 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* * **
47336980 AAATTATTGAAATACCTTCGATTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
47337007 AAATTAC
1 AAATTAC
47337014 CGTTTTACCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:47337022 original size:27 final size:27
Alignment explanation
Indices: 47336992--47337285 Score: 342
Period size: 27 Copynumber: 10.9 Consensus size: 27
47336982 ATTATTGAAA
* * *
47336992 TACCTTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
47337019 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* **
47337046 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTATAGAATTACCGTTT
47337073 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
47337100 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTATAGAATTACCGTTT
* * *
47337127 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTATAGAATTACCGTTT
* *
47337154 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
47337181 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
47337208 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * * *
47337235 TACCCTTGATTTACAGAATTGCTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
47337262 TACCCTCGATTTACAAAATTACCG
1 TACCCTCGATTTATAGAATTACCG
47337286 AAATACCCTC
Statistics
Matches: 236, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.01
27 232 0.98
28 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:47337292 original size:27 final size:27
Alignment explanation
Indices: 47337154--47337402 Score: 95
Period size: 27 Copynumber: 9.1 Consensus size: 27
47337144 ATTATCGTTT
* * * ***
47337154 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGAAA
* ***
47337181 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGAAA
* * ***
47337208 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACCGAAA
* * * * * ***
47337235 TACCCTTGATTTACAGAATTGCTGTTT
1 TACCCTCGATTTATAAAATTACCGAAA
*
47337262 TACCCTCGATTTACAAAATTACCGAAA
1 TACCCTCGATTTATAAAATTACCGAAA
* * * *
47337289 TACCCTCAATTTGTAAAATTGCCAAAA
1 TACCCTCGATTTATAAAATTACCGAAA
* * *
47337316 TACCC-CTGATTTACAAAGTTACAGAAA
1 TACCCTC-GATTTATAAAATTACCGAAA
* * ** *
47337343 TACCCTTGACTTTTTAAAAATTATAGAAG
1 TACCCTCGA-TTTAT-AAAATTACCGAAA
* * * * *
47337372 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACCGAAA
47337399 TACC
1 TACC
47337403 TTTGGTTTGT
Statistics
Matches: 180, Mismatches: 38, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
26 1 0.01
27 156 0.87
28 6 0.03
29 17 0.09
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCGAAA
Found at i:47337320 original size:81 final size:81
Alignment explanation
Indices: 47337008--47337330 Score: 193
Period size: 81 Copynumber: 4.0 Consensus size: 81
47336998 CGATTTGTAA
* * ** * * * * **
47337008 AATTACCGTTTTACCCTCGATTTATAGAATTACC-ATTTTACCCTCAGTTTACAGAATTACTATT
1 AATTACCGTTTTACCCTCGATTTACAAAATTACCGA-AATACCCTCAATTTATAAAATTACCAAA
* * *
47337072 TTACCCTCGATTTATAG
65 ATACCCTTGATTTACAG
* * *** * * * * **
47337089 AATTACCGTTTTACCC-CTAATTTACATAATTACCGTTTTACCC-CTGATTTACATAATTATCGT
1 AATTACCGTTTTACCCTC-GATTTACAAAATTACCGAAATACCCTC-AATTTATAAAATTACCAA
** * *
47337152 TTTACCCTCGACTTACAG
64 AATACCCTTGATTTACAG
* * *** * * *****
47337170 AATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTT
1 AATTACCGTTTTACCCTCGATTTACAAAATTACCGAAATACCCTCAATTTATAAAATTACCAAAA
47337235 TACCCTTGATTTACAG
66 TACCCTTGATTTACAG
* * * *
47337251 AATTGCTGTTTTACCCTCGATTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTGCCAAAA
1 AATTACCGTTTTACCCTCGATTTACAAAATTACCGAAATACCCTCAATTTATAAAATTACCAAAA
*
47337316 TACCCCTGATTTACA
66 TACCCTTGATTTACA
47337331 AAGTTACAGA
Statistics
Matches: 199, Mismatches: 38, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
80 2 0.01
81 195 0.98
82 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (81 bp):
AATTACCGTTTTACCCTCGATTTACAAAATTACCGAAATACCCTCAATTTATAAAATTACCAAAA
TACCCTTGATTTACAG
Found at i:47337407 original size:27 final size:26
Alignment explanation
Indices: 47337355--47337410 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
47337345 CCCTTGACTT
*
47337355 TTTAAAAATTATAGAAGTACCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
*
47337381 TTTACAAAATTACT-GAAATACCTTTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
47337408 TTT
1 TTT
47337411 GTTGATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.81
28 1 0.04
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:47337528 original size:27 final size:27
Alignment explanation
Indices: 47337464--47337528 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
47337454 ACCCCTAAAA
*
47337464 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
47337491 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
47337518 GGTAAAATGAC
1 GGTAAAATGAC
47337529 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:47338705 original size:25 final size:25
Alignment explanation
Indices: 47338676--47338723 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
47338666 TTATAATATG
* * *
47338676 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
47338701 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
47338724 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:47338792 original size:20 final size:20
Alignment explanation
Indices: 47338767--47338825 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
47338757 TAAATATGGT
47338767 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
47338787 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
47338807 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
47338826 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:47338903 original size:24 final size:24
Alignment explanation
Indices: 47338876--47339042 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
47338866 GAGGAAGTGA
47338876 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
47338900 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
47338924 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
47338948 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
47338971 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
47338995 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
47339019 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
47339043 ATGATAAAGC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 101 0.75
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:47338993 original size:71 final size:71
Alignment explanation
Indices: 47338876--47339043 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
47338866 GAGGAAGTGA
47338876 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
47338941 AGTTATC
65 AGTTATC
** *
47338948 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
47339013 GTTATT
66 GTTATC
*
47339019 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
47339044 TGATAAAGCA
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 54 0.61
72 35 0.39
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:47339270 original size:31 final size:31
Alignment explanation
Indices: 47339234--47339328 Score: 154
Period size: 31 Copynumber: 3.1 Consensus size: 31
47339224 CATTTACAGT
* *
47339234 AAAGGCTTCGGCCTAGTAATATGAAATCTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
47339265 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* *
47339296 AAAGGCTTCAGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
47339327 AA
1 AA
47339329 TATGAAAAGG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:47341409 original size:67 final size:67
Alignment explanation
Indices: 47341301--47341434 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
47341291 CCATAGGGCT
47341301 TCAACATATGTCACACATGCTAAGGCCTCTTTAGCTAGTGACATACAATTTTAGGAAACGTATAC
1 TCAACATATGTCACACATGCTAAGGCCTCTTTAGCTAGTGACATACAATTTTAGGAAACGTATAC
47341366 CA
66 CA
47341368 TCAACATATGTCACACATGCTAAGGCCTCTTTAGCTAGTGACATACAATTTTAGGAAACGTATAC
1 TCAACATATGTCACACATGCTAAGGCCTCTTTAGCTAGTGACATACAATTTTAGGAAACGTATAC
47341433 CA
66 CA
47341435 AAAGCCAATA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.28
Consensus pattern (67 bp):
TCAACATATGTCACACATGCTAAGGCCTCTTTAGCTAGTGACATACAATTTTAGGAAACGTATAC
CA
Done.